Literature DB >> 24725073

Understanding genetic variation - the value of systems biology.

Marc-Thorsten Hütt1.   

Abstract

Pharmacology is currently transformed by the vast amounts of genome-associated information available for system-level interpretation. Here I review the potential of systems biology to facilitate this interpretation, thus paving the way for the emerging field of systems pharmacology. In particular, I will show how gene regulatory and metabolic networks can serve as a framework for interpreting high throughput data and as an interface to detailed dynamical models. In addition to the established connectivity analyses of effective networks, I suggest here to also analyze higher order architectural properties of effective networks.
© 2013 The British Pharmacological Society.

Keywords:  biological networks; mathematical modeling; nonlinear dynamics

Mesh:

Year:  2014        PMID: 24725073      PMCID: PMC3971976          DOI: 10.1111/bcp.12266

Source DB:  PubMed          Journal:  Br J Clin Pharmacol        ISSN: 0306-5251            Impact factor:   4.335


  52 in total

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2.  Synchronization reveals topological scales in complex networks.

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3.  The human disease network.

Authors:  Kwang-Il Goh; Michael E Cusick; David Valle; Barton Childs; Marc Vidal; Albert-László Barabási
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Review 4.  Maps of random walks on complex networks reveal community structure.

Authors:  Martin Rosvall; Carl T Bergstrom
Journal:  Proc Natl Acad Sci U S A       Date:  2008-01-23       Impact factor: 11.205

5.  Drug-target network.

Authors:  Muhammed A Yildirim; Kwang-Il Goh; Michael E Cusick; Albert-László Barabási; Marc Vidal
Journal:  Nat Biotechnol       Date:  2007-10       Impact factor: 54.908

6.  Towards whole-body systems physiology.

Authors:  Lars Kuepfer
Journal:  Mol Syst Biol       Date:  2010-09-07       Impact factor: 11.429

7.  Understanding modularity in molecular networks requires dynamics.

Authors:  Roger P Alexander; Philip M Kim; Thierry Emonet; Mark B Gerstein
Journal:  Sci Signal       Date:  2009-07-28       Impact factor: 8.192

Review 8.  The success of pharmacogenomics in moving genetic association studies from bench to bedside: study design and implementation of precision medicine in the post-GWAS era.

Authors:  Marylyn D Ritchie
Journal:  Hum Genet       Date:  2012-08-25       Impact factor: 4.132

9.  A network perspective on metabolic inconsistency.

Authors:  Nikolaus Sonnenschein; José Felipe Golib Dzib; Annick Lesne; Sebastian Eilebrecht; Sheerazed Boulkroun; Maria-Christina Zennaro; Arndt Benecke; Marc-Thorsten Hütt
Journal:  BMC Syst Biol       Date:  2012-05-14

10.  The Edinburgh human metabolic network reconstruction and its functional analysis.

Authors:  Hongwu Ma; Anatoly Sorokin; Alexander Mazein; Alex Selkov; Evgeni Selkov; Oleg Demin; Igor Goryanin
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  8 in total

Review 1.  Connectivity and complex systems: learning from a multi-disciplinary perspective.

Authors:  Laura Turnbull; Marc-Thorsten Hütt; Andreas A Ioannides; Stuart Kininmonth; Ronald Poeppl; Klement Tockner; Louise J Bracken; Saskia Keesstra; Lichan Liu; Rens Masselink; Anthony J Parsons
Journal:  Appl Netw Sci       Date:  2018-06-18

Review 2.  Parsing interindividual drug variability: an emerging role for systems pharmacology.

Authors:  Richard M Turner; B Kevin Park; Munir Pirmohamed
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2015-05-07

3.  Distinct metabolic network states manifest in the gene expression profiles of pediatric inflammatory bowel disease patients and controls.

Authors:  Carolin Knecht; Christoph Fretter; Philip Rosenstiel; Michael Krawczak; Marc-Thorsten Hütt
Journal:  Sci Rep       Date:  2016-09-02       Impact factor: 4.379

4.  The interdependent network of gene regulation and metabolism is robust where it needs to be.

Authors:  David F Klosik; Anne Grimbs; Stefan Bornholdt; Marc-Thorsten Hütt
Journal:  Nat Commun       Date:  2017-09-14       Impact factor: 14.919

5.  A hexokinase isoenzyme switch in human liver cancer cells promotes lipogenesis and enhances innate immunity.

Authors:  Laure Perrin-Cocon; Pierre-Olivier Vidalain; Clémence Jacquemin; Anne Aublin-Gex; Keedrian Olmstead; Baptiste Panthu; Gilles Jeans Philippe Rautureau; Patrice André; Piotr Nyczka; Marc-Thorsten Hütt; Nivea Amoedo; Rodrigue Rossignol; Fabian Volker Filipp; Vincent Lotteau; Olivier Diaz
Journal:  Commun Biol       Date:  2021-02-16

6.  Cocoa bean fingerprinting via correlation networks.

Authors:  Santhust Kumar; Roy N D'Souza; Marcello Corno; Matthias S Ullrich; Nikolai Kuhnert; Marc-Thorsten Hütt
Journal:  NPJ Sci Food       Date:  2022-01-24

7.  Reasoning over genetic variance information in cause-and-effect models of neurodegenerative diseases.

Authors:  Mufassra Naz; Alpha Tom Kodamullil; Martin Hofmann-Apitius
Journal:  Brief Bioinform       Date:  2015-08-05       Impact factor: 11.622

8.  Chromosomal origin of replication coordinates logically distinct types of bacterial genetic regulation.

Authors:  Kosmas Kosmidis; Kim Philipp Jablonski; Georgi Muskhelishvili; Marc-Thorsten Hütt
Journal:  NPJ Syst Biol Appl       Date:  2020-02-17
  8 in total

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